Non-Coding RNA Search

Ss1.1-rpgl20_l8.5

Sequence:


               
               GCTGTTCTTGGAGATGCTCGAGGCCATGATGGACTGAGGCAAGGGCTGGGCACGGGTGGG
GGTGCTGGCAGGACCCGCTCAGCATAGGGTCCACCCAGAGGGGCAGAGCTGGGGTCTGGG
CAGTGCCACAGCCTGCTGGCAGGGCCAGGGCAACACCATCAGCCCCTGGGAGCAGGCCCT
ACGCCCTTCCCTCCCCCCTCCCAGGGGGTGTTAGAAGCTGGCAACGTGTGTGCCCAGGCT
CTGGGCACAGTGCTGCCCCTCGCAAGCCATAACGTGCCCCCAGAGTGTAGGGGGCCTTGC
GGAAGCCATAGGGGGCTGCAGGGGACATGTTTGTGTGTGTGGTGGGGGGGGAGCAGACGC
CTGATCTCAGGGAGGGAAGGGAGTGGAGGCCACAGTCTCCCAGTGGGTGAAGCTTTTGCT
GCTGCTTATTCCGACTTCCTCTCCAGACCAGAGGGGGATTTGGAGAGCAAAGGCCCCTGC
TCTCTTCGCTCTTCTCCTCATCATTTGCATTGGGCATTACTGCCCCCTCCCCTTGAAGCA
ATAACTCCAAGCAGGCTCCAGCCCCTGGACCCCTGAGGTGGCCAGGGCCCCCCCATCAGC
TCCCACCCAGCCTCCTCAGGGGGTAGGGAGAGCACTGCCTCTATGCCCTGCAGAGCAATA
ACACTATATTTATTTTTGGGTTTGGCCAGGGAGGCGCAGGGACATGGGGCAAGCCAGGGC
CCAGAGCCCTTGGCTGTACAGAGACTCTATTTTAATGTATATTTGCTGCAAAGAGAAACC
GCTTTTGGTTTTGAACCTTTAATGAGAAAAAAGAATATAATATCGAGCTCAATAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCTGTTCTTGGAGATGCTCGAGGCCATGATGGACTGAGGCAAGGGCTGGGCACGGGTGGG
GGTGCTGGCAGGACCCGCTCAGCATAGGGTCCACCCAGAGGGGCAGAGCTGGGGTCTGGG
CAGTGCCACAGCCTGCTGGCAGGGCCAGGGCAACACCATCAGCCCCTGGGAGCAGGCCCT
ACGCCCTTCCCTCCCCCCTCCCAGGGGGTGTTAGAAGCTGGCAACGTGTGTGCCCAGGCT
CTGGGCACAGTGCTGCCCCTCGCAAGCCATAACGTGCCCCCAGAGTGTAGGGGGCCTTGC
GGAAGCCATAGGGGGCTGCAGGGGACATGTTTGTGTGTGTGGTGGGGGGGGAGCAGACGC
CTGATCTCAGGGAGGGAAGGGAGTGGAGGCCACAGTCTCCCAGTGGGTGAAGCTTTTGCT
GCTGCTTATTCCGACTTCCTCTCCAGACCAGAGGGGGATTTGGAGAGCAAAGGCCCCTGC
TCTCTTCGCTCTTCTCCTCATCATTTGCATTGGGCATTACTGCCCCCTCCCCTTGAAGCA
ATAACTCCAAGCAGGCTCCAGCCCCTGGACCCCTGAGGTGGCCAGGGCCCCCCCATCAGC
TCCCACCCAGCCTCCTCAGGGGGTAGGGAGAGCACTGCCTCTATGCCCTGCAGAGCAATA
ACACTATATTTATTTTTGGGTTTGGCCAGGGAGGCGCAGGGACATGGGGCAAGCCAGGGC
CCAGAGCCCTTGGCTGTACAGAGACTCTATTTTAATGTATATTTGCTGCAAAGAGAAACC
GCTTTTGGTTTTGAACCTTTAATGAGAAAAAAGAATATAATATCGAGCTCAATAAAAAAA

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               40-736, + strand, RNAz p=0.997844

Predicted RNA structure(s): 1 entry(ies)

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PigEST conread start position and end position of the predicted RNA structure by RNAz,
PigEST conread reading direction of predicted structure,
ncRNA classificator p of RNAz


               
               40-736, + strand, RNAz p=0.997844

Predicted microRNA(s): 4 entry(ies)

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Predicted microRNA(s): 4 entry(ies)

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               566-668, - strand, RNAmicro p=0.98853
               

               
               573-661, + strand, RNAmicro p=0.96531
               

               
               53-142, + strand, RNAmicro p=0.96238
               

               
               424-510, + strand, RNAmicro p=0.960689

Predicted microRNA(s): 4 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               566-668, - strand, RNAmicro p=0.98853
               

               
               573-661, + strand, RNAmicro p=0.96531
               

               
               53-142, + strand, RNAmicro p=0.96238
               

               
               424-510, + strand, RNAmicro p=0.960689

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               395-736, AV603552 Bos taurus kidney fetus Bos taurus cDNA clone E1KI016H04 
(dbj|AV603552.1|), blast E-value=0, identity=92.77% 
               

               
               353-328, CR849803 Normalized and Subtracted bovine endometrium tissues 
(emb|CR849803.2|), blast E-value=0, identity=94.44% 
               

               
               353-328, 968851 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK846360.1|), 
blast E-value=0, identity=94.29% 
               

               
               353-328, 4096796 BARC 10BOV Bos taurus cDNA clone 10BOV36_J19 3', mRNA 
(gb|CK956647.1|), blast E-value=0, identity=96.8% 
               

               
               354-736, LB02624.CR_L18 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV882623.1|), 
blast E-value=0, identity=93.28% 
               

               
               364-325, 296202 Pigtailed macaque ovary library Macaca nemestrina cDNA 3', 
(gb|EB522359.1|), blast E-value=0, identity=94.48%

Similar Transcript(s): 6 entry(ies)

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PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               395-736, AV603552 Bos taurus kidney fetus Bos taurus cDNA clone E1KI016H04 
(dbj|AV603552.1|), blast E-value=0, identity=92.77% 
               

               
               353-328, CR849803 Normalized and Subtracted bovine endometrium tissues 
(emb|CR849803.2|), blast E-value=0, identity=94.44% 
               

               
               353-328, 968851 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK846360.1|), 
blast E-value=0, identity=94.29% 
               

               
               353-328, 4096796 BARC 10BOV Bos taurus cDNA clone 10BOV36_J19 3', mRNA 
(gb|CK956647.1|), blast E-value=0, identity=96.8% 
               

               
               354-736, LB02624.CR_L18 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV882623.1|), 
blast E-value=0, identity=93.28% 
               

               
               364-325, 296202 Pigtailed macaque ovary library Macaca nemestrina cDNA 3', 
(gb|EB522359.1|), blast E-value=0, identity=94.48%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_004451, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_004451, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-835, gnl|bosTau2|chr29 (33424054-33424895)
               

               
               1-835, gnl|Hg17|chr11 (63839978-63840791)
               

               
               1-835, gnl|Mm7|chr19 (6731651-6730841)

Aligned organism(s): 3 entry(ies)

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PigEST conread start position and end position of the aligned locus,
aligned organism with chromosome (chromosome position)
closely related Artiodactyla cow is linked to the PigEST - Genome Map


               
               1-835, gnl|bosTau2|chr29 (33424054-33424895)
               

               
               1-835, gnl|Hg17|chr11 (63839978-63840791)
               

               
               1-835, gnl|Mm7|chr19 (6731651-6730841)

Expressed library(ies): 12 entry(ies)

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Expressed library(ies): 12 entry(ies)

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               nms (0.427716)
               

               
               amn (0.417711)
               

               
               hlv (0.278513)
               

               
               nep (0.183925)
               

               
               cki (0.165235)
               

               
               cli (0.152812)
               

               
               cst (0.140036)
               

               
               che (0.136314)
               

               
               clu (0.119646)
               

               
               pgl (0.118483)
               

               
               med (0.116252)
               

               
               jca (0.11396)

Expressed library(ies): 12 entry(ies)

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Short name of the library (expression score),
see https://rth.dk/resources/pigest/download/pigest_kvl_1.0.1/cDNA_names.html for library description


               
               nms (0.427716)
               

               
               amn (0.417711)
               

               
               hlv (0.278513)
               

               
               nep (0.183925)
               

               
               cki (0.165235)
               

               
               cli (0.152812)
               

               
               cst (0.140036)
               

               
               che (0.136314)
               

               
               clu (0.119646)
               

               
               pgl (0.118483)
               

               
               med (0.116252)
               

               
               jca (0.11396)

	566-668, - strand, RNAmicro p=0.98853
	573-661, + strand, RNAmicro p=0.96531
	53-142, + strand, RNAmicro p=0.96238
	424-510, + strand, RNAmicro p=0.960689

	395-736, AV603552 Bos taurus kidney fetus Bos taurus cDNA clone E1KI016H04 (dbj\|AV603552.1\|), blast E-value=0, identity=92.77%
	353-328, CR849803 Normalized and Subtracted bovine endometrium tissues (emb\|CR849803.2\|), blast E-value=0, identity=94.44%
	353-328, 968851 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK846360.1\|), blast E-value=0, identity=94.29%
	353-328, 4096796 BARC 10BOV Bos taurus cDNA clone 10BOV36_J19 3', mRNA (gb\|CK956647.1\|), blast E-value=0, identity=96.8%
	354-736, LB02624.CR_L18 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb\|DV882623.1\|), blast E-value=0, identity=93.28%
	364-325, 296202 Pigtailed macaque ovary library Macaca nemestrina cDNA 3', (gb\|EB522359.1\|), blast E-value=0, identity=94.48%

	1-835, gnl\|bosTau2\|chr29 (33424054-33424895)
	1-835, gnl\|Hg17\|chr11 (63839978-63840791)
	1-835, gnl\|Mm7\|chr19 (6731651-6730841)

	nms (0.427716)
	amn (0.417711)
	hlv (0.278513)
	nep (0.183925)
	cki (0.165235)
	cli (0.152812)
	cst (0.140036)
	che (0.136314)
	clu (0.119646)
	pgl (0.118483)
	med (0.116252)
	jca (0.11396)